GREMLIN Database
YPMR - Uncharacterized protein YpmR
UniProt: P40766 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 255 (205)
Sequences: 4492 (3608)
Seq/√Len: 252.0

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
169_S207_I4.6071.00
146_E197_K3.5531.00
150_E201_K3.2151.00
43_I114_F3.2111.00
94_L117_I2.9671.00
168_V243_V2.6111.00
209_H212_D2.6101.00
169_S209_H2.5361.00
154_S203_K2.4451.00
150_E203_K2.3151.00
164_E206_K2.2341.00
52_E87_K2.2211.00
196_E200_K2.1271.00
242_R245_Q2.1261.00
51_T85_A2.1251.00
149_F195_A2.0731.00
237_S241_K2.0671.00
45_A114_F2.0501.00
91_S148_R2.0481.00
150_E154_S1.9931.00
42_V111_D1.9891.00
155_E159_L1.9601.00
150_E198_E1.9221.00
45_A63_V1.8751.00
69_S244_Y1.8671.00
41_I111_D1.8621.00
45_A51_T1.8591.00
167_Y199_L1.8481.00
65_K237_S1.8461.00
89_N97_K1.8151.00
160_N163_A1.8081.00
113_V163_A1.7841.00
188_V192_N1.7501.00
50_L119_G1.7431.00
42_V80_D1.7411.00
113_V156_I1.7351.00
153_I167_Y1.7211.00
54_V87_K1.7191.00
99_K155_E1.6941.00
89_N93_D1.6521.00
95_L151_K1.6431.00
91_S149_F1.6041.00
146_E194_I1.5581.00
153_I205_A1.5541.00
166_I208_V1.5541.00
189_T211_E1.5331.00
210_I239_I1.5121.00
196_E207_I1.4971.00
149_F167_Y1.4951.00
146_E150_E1.4651.00
66_V244_Y1.4491.00
95_L148_R1.4451.00
236_Y239_I1.4291.00
42_V82_K1.4281.00
91_S152_I1.4191.00
208_V246_A1.3891.00
155_E158_E1.3751.00
166_I206_K1.3701.00
103_V106_G1.3581.00
169_S196_E1.3481.00
53_G236_Y1.3401.00
197_K201_K1.3371.00
112_Y166_I1.3031.00
192_N195_A1.3001.00
66_V243_V1.2881.00
213_L242_R1.2671.00
51_T116_T1.2611.00
231_P239_I1.2411.00
65_K69_S1.2261.00
146_E198_E1.2241.00
95_L155_E1.2241.00
44_A110_A1.2001.00
198_E203_K1.1971.00
86_V89_N1.1921.00
165_L205_A1.1921.00
94_L152_I1.1831.00
193_H196_E1.1751.00
116_T119_G1.1581.00
34_E37_T1.1471.00
69_S241_K1.1461.00
43_I112_Y1.1361.00
123_M229_F1.1111.00
151_K154_S1.0991.00
45_A66_V1.0951.00
42_V109_D1.0831.00
145_Y149_F1.0781.00
185_N189_T1.0771.00
61_G64_G1.0771.00
234_T237_S1.0711.00
49_S230_H1.0621.00
194_I197_K1.0591.00
63_V81_V1.0571.00
91_S95_L1.0551.00
240_A244_Y1.0531.00
84_Y105_K1.0491.00
206_K246_A1.0471.00
102_K105_K1.0451.00
141_A144_P1.0441.00
121_D148_R1.0441.00
46_V84_Y1.0131.00
50_L171_Y1.0111.00
107_I160_N1.0061.00
67_A71_R0.9901.00
116_T168_V0.9831.00
66_V69_S0.9771.00
61_G83_N0.9771.00
149_F198_E0.9691.00
193_H197_K0.9561.00
145_Y191_W0.9521.00
238_L241_K0.9461.00
50_L236_Y0.9461.00
137_P140_E0.9431.00
50_L231_P0.9351.00
192_N211_E0.9271.00
57_P233_G0.9231.00
153_I157_R0.9181.00
28_G31_K0.9151.00
145_Y195_A0.9131.00
149_F152_I0.9071.00
175_T183_E0.9071.00
54_V236_Y0.9031.00
169_S210_I0.8991.00
93_D96_E0.8901.00
30_Q33_H0.8881.00
199_L207_I0.8871.00
44_A84_Y0.8781.00
84_Y106_G0.8711.00
64_G68_D0.8610.99
119_G229_F0.8590.99
90_R93_D0.8540.99
178_L181_L0.8530.99
65_K68_D0.8500.99
176_F180_E0.8470.99
90_R124_K0.8400.99
91_S117_I0.8400.99
56_D61_G0.8390.99
153_I198_E0.8300.99
46_V94_L0.8270.99
65_K240_A0.8230.99
156_I163_A0.8220.99
101_K105_K0.8210.99
151_K155_E0.8210.99
233_G237_S0.8200.99
62_Y243_V0.8200.99
56_D59_G0.8200.99
231_P236_Y0.8170.99
144_P148_R0.8130.99
136_E139_Q0.8120.99
30_Q34_E0.8100.99
157_R165_L0.8090.99
195_A207_I0.8080.99
65_K236_Y0.8040.99
167_Y195_A0.8030.99
149_F153_I0.8020.99
98_L156_I0.8000.99
85_A97_K0.8000.99
28_G32_A0.7950.99
101_K106_G0.7940.99
177_T180_E0.7930.99
214_F235_G0.7910.99
198_E201_K0.7890.99
41_I79_V0.7890.99
46_V98_L0.7840.99
145_Y194_I0.7820.99
121_D235_G0.7800.99
143_K194_I0.7750.99
224_S227_D0.7750.99
115_F156_I0.7750.99
139_Q190_D0.7630.99
117_I149_F0.7610.99
161_D164_E0.7600.99
62_Y114_F0.7570.99
31_K36_K0.7540.99
28_G33_H0.7540.99
170_M191_W0.7500.99
172_N185_N0.7470.99
92_D148_R0.7430.98
140_E144_P0.7430.98
101_K104_Q0.7410.98
51_T63_V0.7410.98
95_L152_I0.7400.98
64_G67_A0.7290.98
83_N86_V0.7270.98
196_E209_H0.7270.98
43_I81_V0.7250.98
172_N189_T0.7190.98
102_K106_G0.7180.98
63_V70_I0.7120.98
146_E201_K0.7110.98
142_E146_E0.7060.98
142_E194_I0.7040.98
57_P60_K0.7040.98
194_I198_E0.6960.98
29_K35_T0.6950.98
32_A37_T0.6950.98
143_K147_K0.6950.98
51_T171_Y0.6930.98
107_I110_A0.6890.97
161_D165_L0.6890.97
152_I155_E0.6890.97
234_T238_L0.6880.97
28_G34_E0.6870.97
147_K151_K0.6870.97
63_V66_V0.6830.97
77_K80_D0.6810.97
67_A70_I0.6810.97
179_S182_N0.6760.97
32_A36_K0.6760.97
238_L242_R0.6610.97
214_F238_L0.6600.97
69_S240_A0.6580.97
107_I159_L0.6570.97
104_Q159_L0.6550.97
104_Q108_K0.6550.97
212_D242_R0.6540.97
40_H111_D0.6520.97
235_G239_I0.6510.96
91_S98_L0.6420.96
167_Y205_A0.6410.96
143_K146_E0.6400.96
48_D119_G0.6400.96
85_A236_Y0.6400.96
63_V67_A0.6400.96
113_V165_L0.6370.96
41_I112_Y0.6350.96
185_N188_V0.6340.96
85_A235_G0.6310.96
159_L163_A0.6300.96
95_L99_K0.6260.96
168_V210_I0.6220.95
120_N230_H0.6220.95
142_E190_D0.6200.95
186_G190_D0.6180.95
191_W195_A0.6170.95
43_I62_Y0.6150.95
199_L204_H0.6140.95
32_A35_T0.6130.95
62_Y66_V0.6120.95
33_H36_K0.6110.95
70_I73_D0.6090.95
94_L97_K0.6080.95
98_L152_I0.6080.95
30_Q35_T0.6060.95
173_P229_F0.6050.95
103_V155_E0.6040.95
55_G229_F0.6020.95
110_A160_N0.6010.95
137_P141_A0.6010.95
157_R205_A0.5980.94
52_E119_G0.5950.94
45_A81_V0.5920.94
153_I203_K0.5910.94
157_R203_K0.5910.94
208_V242_R0.5910.94
92_D96_E0.5900.94
214_F242_R0.5900.94
29_K32_A0.5890.94
49_S120_N0.5870.94
116_T171_Y0.5870.94
213_L238_L0.5850.94
29_K37_T0.5840.94
30_Q37_T0.5780.93
56_D233_G0.5780.93
86_V93_D0.5750.93
61_G236_Y0.5750.93
110_A163_A0.5710.93
89_N119_G0.5700.93
232_N235_G0.5700.93
242_R246_A0.5700.93
208_V243_V0.5680.93
186_G200_K0.5680.93
62_Y67_A0.5670.93
51_T62_Y0.5620.92
117_I120_N0.5610.92
147_K150_E0.5610.92
66_V240_A0.5610.92
56_D86_V0.5580.92
170_M192_N0.5550.92
105_K108_K0.5530.92
89_N117_I0.5470.91
199_L205_A0.5470.91
177_T182_N0.5430.91
45_A62_Y0.5430.91
136_E140_E0.5430.91
39_E42_V0.5420.91
94_L115_F0.5370.91
166_I247_I0.5350.90
115_F152_I0.5340.90
175_T181_L0.5240.89
225_E228_D0.5230.89
85_A232_N0.5210.89
157_R204_H0.5200.89
99_K207_I0.5180.89
148_R151_K0.5160.89
172_N188_V0.5120.88
41_I72_S0.5120.88
91_S145_Y0.5120.88
193_H198_E0.5120.88
116_T169_S0.5100.88
35_T38_K0.5090.88
186_G189_T0.5060.88
138_F141_A0.5050.88
69_S237_S0.5040.88
212_D215_N0.5020.87
69_S72_S0.5020.87
113_V160_N0.5010.87
44_A82_K0.5010.87
190_D193_H0.5000.87
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
4q9aA 2 0.8118 100 0.389 Contact Map
1escA 1 0.8275 100 0.396 Contact Map
4hyqA 1 0.7804 100 0.41 Contact Map
4jggA 1 0.7059 100 0.421 Contact Map
3bzwA 4 0.8353 100 0.423 Contact Map
1vjgA 2 0.7725 100 0.434 Contact Map
3rjtA 2 0.7961 100 0.437 Contact Map
4rw0A 1 0.7216 100 0.44 Contact Map
4jhlA 5 0.8157 100 0.44 Contact Map
3dc7A 3 0.7843 100 0.441 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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